data_8SU9
#
_model_server_result.job_id            l6j1L-k085YJNkBM4kOSWA 
_model_server_result.datetime_utc      '2024-11-14 18:49:03' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          8su9 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"CA","auth_seq_id":501}' 
#
_entry.id    8SU9 
#
_exptl.entry_id    8SU9 
_exptl.method      'ELECTRON MICROSCOPY' 
#
_entity.details                     ? 
_entity.formula_weight              559.316 
_entity.id                          3 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' 
_entity.pdbx_number_of_molecules    12 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            8SU9 
_cell.length_a            1 
_cell.length_b            1 
_cell.length_c            1 
_cell.Z_PDB               ? 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 8SU9 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        1 
_symmetry.space_group_name_Hall    ? 
_symmetry.space_group_name_H-M     'P 1' 
#
_pdbx_struct_assembly.method_details        ? 
_pdbx_struct_assembly.oligomeric_details    octadecameric 
_pdbx_struct_assembly.oligomeric_count      18 
_pdbx_struct_assembly.details               author_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C,D,E,F,G,H,I,J,K,L,M,N,O,P,Q,R,S,T,U,V,W,X,Y,Z,AA,BA,CA,DA,EA,FA,GA,HA,IA,JA,KA,LA,MA,NA 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    ? 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
loop_
_struct_asym.details
_struct_asym.entity_id
_struct_asym.id
_struct_asym.pdbx_modified
_struct_asym.pdbx_blank_PDB_chainid_flag
? 3 S N N 
? 3 T N N 
? 3 U N N 
? 3 V N N 
? 3 W N N 
? 3 X N N 
? 3 Y N N 
? 3 Z N N 
? 3 AA N N 
? 3 BA N N 
? 3 CA N N 
? 3 DA N N 
#
loop_
_struct_conn.conn_type_id
_struct_conn.details
_struct_conn.id
_struct_conn.ptnr1_label_asym_id
_struct_conn.ptnr1_label_atom_id
_struct_conn.ptnr1_label_comp_id
_struct_conn.ptnr1_label_seq_id
_struct_conn.ptnr1_auth_asym_id
_struct_conn.ptnr1_auth_comp_id
_struct_conn.ptnr1_auth_seq_id
_struct_conn.ptnr1_symmetry
_struct_conn.ptnr2_label_asym_id
_struct_conn.ptnr2_label_atom_id
_struct_conn.ptnr2_label_comp_id
_struct_conn.ptnr2_label_seq_id
_struct_conn.ptnr2_auth_asym_id
_struct_conn.ptnr2_auth_comp_id
_struct_conn.ptnr2_auth_seq_id
_struct_conn.ptnr2_symmetry
_struct_conn.pdbx_ptnr1_PDB_ins_code
_struct_conn.pdbx_ptnr1_label_alt_id
_struct_conn.pdbx_ptnr1_standard_comp_id
_struct_conn.pdbx_ptnr2_PDB_ins_code
_struct_conn.pdbx_ptnr2_label_alt_id
_struct_conn.pdbx_ptnr3_PDB_ins_code
_struct_conn.pdbx_ptnr3_label_alt_id
_struct_conn.pdbx_ptnr3_label_asym_id
_struct_conn.pdbx_ptnr3_label_atom_id
_struct_conn.pdbx_ptnr3_label_comp_id
_struct_conn.pdbx_ptnr3_label_seq_id
_struct_conn.pdbx_PDB_id
_struct_conn.pdbx_dist_value
_struct_conn.pdbx_value_order
metalc ? metalc1 M OG SER 184 M SER 184 1_555 FA MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.619 ? 
metalc ? metalc2 EA O3B ADP . M ADP 701 1_555 FA MG MG . M MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.014 ? 
metalc ? metalc3 N OG SER 184 N SER 184 1_555 HA MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.217 ? 
metalc ? metalc4 GA O3B ADP . N ADP 701 1_555 HA MG MG . N MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.013 ? 
metalc ? metalc5 O OG SER 184 O SER 184 1_555 JA MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.788 ? 
metalc ? metalc6 IA O3B ADP . O ADP 701 1_555 JA MG MG . O MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.12 ? 
metalc ? metalc7 P OG SER 184 P SER 184 1_555 LA MG MG . P MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.64 ? 
metalc ? metalc8 MA O2B ADP . Q ADP 701 1_555 NA MG MG . Q MG 702 1_555 ? ? ? ? ? ? ? ? ? ? ? ? 2.019 ? 
#
_chem_comp.formula           'C15 H23 N5 O14 P2' 
_chem_comp.formula_weight    559.316 
_chem_comp.id                AR6 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              '[(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE' 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     Adenosine-5-Diphosphoribose 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
N1 C2 AR6 doub 57 n y 
N1 C6 AR6 sing 58 n y 
C2 N3 AR6 sing 59 n y 
N3 C4 AR6 doub 60 n y 
C4 C5 AR6 sing 61 n y 
C4 N9 AR6 sing 62 n y 
C5 C6 AR6 doub 63 n y 
C5 N7 AR6 sing 64 n y 
C6 N6 AR6 sing 65 n n 
N7 C8 AR6 doub 66 n y 
C8 N9 AR6 sing 67 n y 
N9 C1' AR6 sing 68 n n 
PA O1A AR6 sing 69 n n 
PA O2A AR6 doub 70 n n 
PA O3A AR6 sing 71 n n 
PA O5' AR6 sing 72 n n 
PB O1B AR6 sing 73 n n 
PB O2B AR6 doub 74 n n 
PB O3A AR6 sing 75 n n 
PB O5D AR6 sing 76 n n 
C1' C2' AR6 sing 77 n n 
C1' O4' AR6 sing 78 n n 
C1D O1D AR6 sing 79 n n 
C1D C2D AR6 sing 80 n n 
C1D O4D AR6 sing 81 n n 
C2' O2' AR6 sing 82 n n 
C2' C3' AR6 sing 83 n n 
C2D O2D AR6 sing 84 n n 
C2D C3D AR6 sing 85 n n 
C3' O3' AR6 sing 86 n n 
C3' C4' AR6 sing 87 n n 
C3D O3D AR6 sing 88 n n 
C3D C4D AR6 sing 89 n n 
C4' O4' AR6 sing 90 n n 
C4' C5' AR6 sing 91 n n 
C4D O4D AR6 sing 92 n n 
C4D C5D AR6 sing 93 n n 
C5' O5' AR6 sing 94 n n 
C5D O5D AR6 sing 95 n n 
C2 H2 AR6 sing 96 n n 
N6 HN6 AR6 sing 97 n n 
N6 HN6A AR6 sing 98 n n 
C8 H8 AR6 sing 99 n n 
C1' H1' AR6 sing 100 n n 
C1D H1D AR6 sing 101 n n 
C2' H2' AR6 sing 102 n n 
O2' HO2' AR6 sing 103 n n 
C2D H2D AR6 sing 104 n n 
O2D HO2D AR6 sing 105 n n 
C3' H3' AR6 sing 106 n n 
O3' HO3' AR6 sing 107 n n 
C3D H3D AR6 sing 108 n n 
O3D HO3D AR6 sing 109 n n 
C4' H4' AR6 sing 110 n n 
C4D H4D AR6 sing 111 n n 
C5' H5' AR6 sing 112 n n 
C5' "H5'A" AR6 sing 113 n n 
C5D H5D AR6 sing 114 n n 
C5D H5DA AR6 sing 115 n n 
O1A H1A AR6 sing 116 n n 
O1B H1B AR6 sing 117 n n 
O1D HD1 AR6 sing 118 n n 
#
_atom_sites.entry_id                     8SU9 
_atom_sites.fract_transf_matrix[1][1]    1 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    1 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    1 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
loop_
_pdbx_nonpoly_scheme.asym_id
_pdbx_nonpoly_scheme.entity_id
_pdbx_nonpoly_scheme.mon_id
_pdbx_nonpoly_scheme.pdb_strand_id
_pdbx_nonpoly_scheme.ndb_seq_num
_pdbx_nonpoly_scheme.pdb_seq_num
_pdbx_nonpoly_scheme.auth_seq_num
_pdbx_nonpoly_scheme.pdb_mon_id
_pdbx_nonpoly_scheme.auth_mon_id
_pdbx_nonpoly_scheme.pdb_ins_code
S 3 AR6 A 1 501 501 AR6 AR6 . 
T 3 AR6 B 1 501 501 AR6 AR6 . 
U 3 AR6 C 1 501 501 AR6 AR6 . 
V 3 AR6 D 1 501 501 AR6 AR6 . 
W 3 AR6 E 1 501 501 AR6 AR6 . 
X 3 AR6 F 1 501 501 AR6 AR6 . 
Y 3 AR6 G 1 501 501 AR6 AR6 . 
Z 3 AR6 H 1 501 501 AR6 AR6 . 
AA 3 AR6 I 1 501 501 AR6 AR6 . 
BA 3 AR6 J 1 501 501 AR6 AR6 . 
CA 3 AR6 K 1 501 501 AR6 AR6 . 
DA 3 AR6 L 1 501 501 AR6 AR6 . 
EA 4 ADP M 1 701 701 ADP ADP . 
FA 5 MG M 1 702 703 MG MG . 
GA 4 ADP N 1 701 701 ADP ADP . 
HA 5 MG N 1 702 704 MG MG . 
IA 4 ADP O 1 701 701 ADP ADP . 
JA 5 MG O 1 702 705 MG MG . 
KA 4 ADP P 1 701 701 ADP ADP . 
LA 5 MG P 1 702 702 MG MG . 
MA 4 ADP Q 1 701 701 ADP ADP . 
NA 5 MG Q 1 702 706 MG MG . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 N N1 AR6 . . . CA 3 122.812 177.118 205.035 1 54.83 ? N1 AR6 501 K 1 
HETATM 2 C C2 AR6 . . . CA 3 122.891 176.043 204.258 1 51.49 ? C2 AR6 501 K 1 
HETATM 3 N N3 AR6 . . . CA 3 121.961 175.139 204.017 1 54.55 ? N3 AR6 501 K 1 
HETATM 4 C C4 AR6 . . . CA 3 120.832 175.404 204.666 1 50.95 ? C4 AR6 501 K 1 
HETATM 5 C C5 AR6 . . . CA 3 120.6 176.481 205.504 1 49.17 ? C5 AR6 501 K 1 
HETATM 6 C C6 AR6 . . . CA 3 121.671 177.372 205.679 1 49.85 ? C6 AR6 501 K 1 
HETATM 7 N N6 AR6 . . . CA 3 121.592 178.453 206.46 1 47.89 ? N6 AR6 501 K 1 
HETATM 8 N N7 AR6 . . . CA 3 119.327 176.445 206.004 1 50.16 ? N7 AR6 501 K 1 
HETATM 9 C C8 AR6 . . . CA 3 118.802 175.377 205.48 1 46.98 ? C8 AR6 501 K 1 
HETATM 10 N N9 AR6 . . . CA 3 119.665 174.702 204.66 1 50.24 ? N9 AR6 501 K 1 
HETATM 11 P PA AR6 . . . CA 3 115.438 173.161 199.32 1 50.77 ? PA AR6 501 K 1 
HETATM 12 P PB AR6 . . . CA 3 116.549 173.145 196.607 1 53.96 ? PB AR6 501 K 1 
HETATM 13 C C1' AR6 . . . CA 3 119.409 173.489 203.923 1 52.57 ? C1' AR6 501 K 1 
HETATM 14 O O1A AR6 . . . CA 3 114.727 171.914 198.916 1 53.37 ? O1A AR6 501 K 1 
HETATM 15 O O1B AR6 . . . CA 3 116.089 171.723 196.622 1 55.7 ? O1B AR6 501 K 1 
HETATM 16 C C1D AR6 . . . CA 3 114.337 171.1 193.109 1 62.81 ? C1D AR6 501 K 1 
HETATM 17 O O1D AR6 . . . CA 3 114.75 169.899 193.653 1 65.19 ? O1D AR6 501 K 1 
HETATM 18 C C2' AR6 . . . CA 3 118.185 172.717 204.397 1 53.82 ? C2' AR6 501 K 1 
HETATM 19 O O2' AR6 . . . CA 3 118.483 172.011 205.564 1 63.8 ? O2' AR6 501 K 1 
HETATM 20 O O2A AR6 . . . CA 3 114.703 174.228 200.069 1 57.28 ? O2A AR6 501 K 1 
HETATM 21 O O2B AR6 . . . CA 3 117.911 173.485 196.105 1 50.3 ? O2B AR6 501 K 1 
HETATM 22 C C2D AR6 . . . CA 3 115.256 171.5 191.949 1 55.49 ? C2D AR6 501 K 1 
HETATM 23 O O2D AR6 . . . CA 3 116.455 170.774 191.956 1 57.28 ? O2D AR6 501 K 1 
HETATM 24 C C3' AR6 . . . CA 3 117.919 171.849 203.164 1 50.12 ? C3' AR6 501 K 1 
HETATM 25 O O3' AR6 . . . CA 3 118.801 170.76 203.13 1 55.31 ? O3' AR6 501 K 1 
HETATM 26 O O3A AR6 . . . CA 3 116.312 173.809 198.091 1 55.74 ? O3A AR6 501 K 1 
HETATM 27 C C3D AR6 . . . CA 3 115.58 172.955 192.275 1 58.63 ? C3D AR6 501 K 1 
HETATM 28 O O3D AR6 . . . CA 3 116.803 173.432 191.803 1 63.96 ? O3D AR6 501 K 1 
HETATM 29 C C4' AR6 . . . CA 3 118.271 172.801 202.028 1 48.08 ? C4' AR6 501 K 1 
HETATM 30 O O4' AR6 . . . CA 3 119.112 173.807 202.6 1 57.88 ? O4' AR6 501 K 1 
HETATM 31 C C4D AR6 . . . CA 3 115.574 172.908 193.798 1 57.24 ? C4D AR6 501 K 1 
HETATM 32 O O4D AR6 . . . CA 3 114.418 172.142 194.062 1 61.93 ? O4D AR6 501 K 1 
HETATM 33 C C5' AR6 . . . CA 3 117.033 173.4 201.388 1 49.92 ? C5' AR6 501 K 1 
HETATM 34 O O5' AR6 . . . CA 3 116.787 172.74 200.171 1 57.71 ? O5' AR6 501 K 1 
HETATM 35 C C5D AR6 . . . CA 3 115.49 174.258 194.466 1 52.26 ? C5D AR6 501 K 1 
HETATM 36 O O5D AR6 . . . CA 3 115.423 174.094 195.869 1 60.9 ? O5D AR6 501 K 1 
#
_model_server_stats.io_time_ms              28 
_model_server_stats.parse_time_ms           14 
_model_server_stats.create_model_time_ms    89 
_model_server_stats.query_time_ms           295 
_model_server_stats.encode_time_ms          3 
_model_server_stats.element_count           36 
#